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1. A Deep Learning-Based Real-time Seizure Detection System

   https://doi.org/10.1109/SPMB50085.2020.9353623  

   Shawki, N. ; Elseify, T. ; Cap, T. ; Shah, V. ; Obeid, I. ; Picone, J. ( December 2020 , Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB))

   Obeid, Iyad Selesnick (Ed.)

   Electroencephalography (EEG) is a popular clinical monitoring tool used for diagnosing brain-related disorders such as epilepsy [1]. As monitoring EEGs in a critical-care setting is an expensive and tedious task, there is a great interest in developing real-time EEG monitoring tools to improve patient care quality and efficiency [2]. However, clinicians require automatic seizure detection tools that provide decisions with at least 75% sensitivity and less than 1 false alarm (FA) per 24 hours [3]. Some commercial tools recently claim to reach such performance levels, including the Olympic Brainz Monitor [4] and Persyst 14 [5]. In this abstract, we describe our efforts to transform a high-performance offline seizure detection system [3] into a low latency real-time or online seizure detection system. An overview of the system is shown in Figure 1. The main difference between an online versus offline system is that an online system should always be causal and has minimum latency which is often defined by domain experts. The offline system, shown in Figure 2, uses two phases of deep learning models with postprocessing [3]. The channel-based long short term memory (LSTM) model (Phase 1 or P1) processes linear frequency cepstral coefficients (LFCC) [6] features from each EEG channel separately. We use the hypotheses generated by the P1 model and create additional features that carry information about the detected events and their confidence. The P2 model uses these additional features and the LFCC features to learn the temporal and spatial aspects of the EEG signals using a hybrid convolutional neural network (CNN) and LSTM model. Finally, Phase 3 aggregates the results from both P1 and P2 before applying a final postprocessing step. The online system implements Phase 1 by taking advantage of the Linux piping mechanism, multithreading techniques, and multi-core processors. To convert Phase 1 into an online system, we divide the system into five major modules: signal preprocessor, feature extractor, event decoder, postprocessor, and visualizer. The system reads 0.1-second frames from each EEG channel and sends them to the feature extractor and the visualizer. The feature extractor generates LFCC features in real time from the streaming EEG signal. Next, the system computes seizure and background probabilities using a channel-based LSTM model and applies a postprocessor to aggregate the detected events across channels. The system then displays the EEG signal and the decisions simultaneously using a visualization module. The online system uses C++, Python, TensorFlow, and PyQtGraph in its implementation. The online system accepts streamed EEG data sampled at 250 Hz as input. The system begins processing the EEG signal by applying a TCP montage [8]. Depending on the type of the montage, the EEG signal can have either 22 or 20 channels. To enable the online operation, we send 0.1-second (25 samples) length frames from each channel of the streamed EEG signal to the feature extractor and the visualizer. Feature extraction is performed sequentially on each channel. The signal preprocessor writes the sample frames into two streams to facilitate these modules. In the first stream, the feature extractor receives the signals using stdin. In parallel, as a second stream, the visualizer shares a user-defined file with the signal preprocessor. This user-defined file holds raw signal information as a buffer for the visualizer. The signal preprocessor writes into the file while the visualizer reads from it. Reading and writing into the same file poses a challenge. The visualizer can start reading while the signal preprocessor is writing into it. To resolve this issue, we utilize a file locking mechanism in the signal preprocessor and visualizer. Each of the processes temporarily locks the file, performs its operation, releases the lock, and tries to obtain the lock after a waiting period. The file locking mechanism ensures that only one process can access the file by prohibiting other processes from reading or writing while one process is modifying the file [9]. The feature extractor uses circular buffers to save 0.3 seconds or 75 samples from each channel for extracting 0.2-second or 50-sample long center-aligned windows. The module generates 8 absolute LFCC features where the zeroth cepstral coefficient is replaced by a temporal domain energy term. For extracting the rest of the features, three pipelines are used. The differential energy feature is calculated in a 0.9-second absolute feature window with a frame size of 0.1 seconds. The difference between the maximum and minimum temporal energy terms is calculated in this range. Then, the first derivative or the delta features are calculated using another 0.9-second window. Finally, the second derivative or delta-delta features are calculated using a 0.3-second window [6]. The differential energy for the delta-delta features is not included. In total, we extract 26 features from the raw sample windows which add 1.1 seconds of delay to the system. We used the Temple University Hospital Seizure Database (TUSZ) v1.2.1 for developing the online system [10]. The statistics for this dataset are shown in Table 1. A channel-based LSTM model was trained using the features derived from the train set using the online feature extractor module. A window-based normalization technique was applied to those features. In the offline model, we scale features by normalizing using the maximum absolute value of a channel [11] before applying a sliding window approach. Since the online system has access to a limited amount of data, we normalize based on the observed window. The model uses the feature vectors with a frame size of 1 second and a window size of 7 seconds. We evaluated the model using the offline P1 postprocessor to determine the efficacy of the delayed features and the window-based normalization technique. As shown by the results of experiments 1 and 4 in Table 2, these changes give us a comparable performance to the offline model. The online event decoder module utilizes this trained model for computing probabilities for the seizure and background classes. These posteriors are then postprocessed to remove spurious detections. The online postprocessor receives and saves 8 seconds of class posteriors in a buffer for further processing. It applies multiple heuristic filters (e.g., probability threshold) to make an overall decision by combining events across the channels. These filters evaluate the average confidence, the duration of a seizure, and the channels where the seizures were observed. The postprocessor delivers the label and confidence to the visualizer. The visualizer starts to display the signal as soon as it gets access to the signal file, as shown in Figure 1 using the “Signal File” and “Visualizer” blocks. Once the visualizer receives the label and confidence for the latest epoch from the postprocessor, it overlays the decision and color codes that epoch. The visualizer uses red for seizure with the label SEIZ and green for the background class with the label BCKG. Once the streaming finishes, the system saves three files: a signal file in which the sample frames are saved in the order they were streamed, a time segmented event (TSE) file with the overall decisions and confidences, and a hypotheses (HYP) file that saves the label and confidence for each epoch. The user can plot the signal and decisions using the signal and HYP files with only the visualizer by enabling appropriate options. For comparing the performance of different stages of development, we used the test set of TUSZ v1.2.1 database. It contains 1015 EEG records of varying duration. The any-overlap performance [12] of the overall system shown in Figure 2 is 40.29% sensitivity with 5.77 FAs per 24 hours. For comparison, the previous state-of-the-art model developed on this database performed at 30.71% sensitivity with 6.77 FAs per 24 hours [3]. The individual performances of the deep learning phases are as follows: Phase 1’s (P1) performance is 39.46% sensitivity and 11.62 FAs per 24 hours, and Phase 2 detects seizures with 41.16% sensitivity and 11.69 FAs per 24 hours. We trained an LSTM model with the delayed features and the window-based normalization technique for developing the online system. Using the offline decoder and postprocessor, the model performed at 36.23% sensitivity with 9.52 FAs per 24 hours. The trained model was then evaluated with the online modules. The current performance of the overall online system is 45.80% sensitivity with 28.14 FAs per 24 hours. Table 2 summarizes the performances of these systems. The performance of the online system deviates from the offline P1 model because the online postprocessor fails to combine the events as the seizure probability fluctuates during an event. The modules in the online system add a total of 11.1 seconds of delay for processing each second of the data, as shown in Figure 3. In practice, we also count the time for loading the model and starting the visualizer block. When we consider these facts, the system consumes 15 seconds to display the first hypothesis. The system detects seizure onsets with an average latency of 15 seconds. Implementing an automatic seizure detection model in real time is not trivial. We used a variety of techniques such as the file locking mechanism, multithreading, circular buffers, real-time event decoding, and signal-decision plotting to realize the system. A video demonstrating the system is available at: https://www.isip.piconepress.com/projects/nsf_pfi_tt/resources/videos/realtime_eeg_analysis/v2.5.1/video_2.5.1.mp4. The final conference submission will include a more detailed analysis of the online performance of each module. ACKNOWLEDGMENTS Research reported in this publication was most recently supported by the National Science Foundation Partnership for Innovation award number IIP-1827565 and the Pennsylvania Commonwealth Universal Research Enhancement Program (PA CURE). Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the official views of any of these organizations. REFERENCES [1] A. Craik, Y. He, and J. L. Contreras-Vidal, “Deep learning for electroencephalogram (EEG) classification tasks: a review,” J. Neural Eng., vol. 16, no. 3, p. 031001, 2019. https://doi.org/10.1088/1741-2552/ab0ab5. [2] A. C. Bridi, T. Q. Louro, and R. C. L. Da Silva, “Clinical Alarms in intensive care: implications of alarm fatigue for the safety of patients,” Rev. Lat. Am. Enfermagem, vol. 22, no. 6, p. 1034, 2014. https://doi.org/10.1590/0104-1169.3488.2513. [3] M. Golmohammadi, V. Shah, I. Obeid, and J. Picone, “Deep Learning Approaches for Automatic Seizure Detection from Scalp Electroencephalograms,” in Signal Processing in Medicine and Biology: Emerging Trends in Research and Applications, 1st ed., I. Obeid, I. Selesnick, and J. Picone, Eds. New York, New York, USA: Springer, 2020, pp. 233–274. https://doi.org/10.1007/978-3-030-36844-9_8. [4] “CFM Olympic Brainz Monitor.” [Online]. Available: https://newborncare.natus.com/products-services/newborn-care-products/newborn-brain-injury/cfm-olympic-brainz-monitor. [Accessed: 17-Jul-2020]. [5] M. L. Scheuer, S. B. Wilson, A. Antony, G. Ghearing, A. Urban, and A. I. Bagic, “Seizure Detection: Interreader Agreement and Detection Algorithm Assessments Using a Large Dataset,” J. Clin. Neurophysiol., 2020. https://doi.org/10.1097/WNP.0000000000000709. [6] A. Harati, M. Golmohammadi, S. Lopez, I. Obeid, and J. Picone, “Improved EEG Event Classification Using Differential Energy,” in Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium, 2015, pp. 1–4. https://doi.org/10.1109/SPMB.2015.7405421. [7] V. Shah, C. Campbell, I. Obeid, and J. Picone, “Improved Spatio-Temporal Modeling in Automated Seizure Detection using Channel-Dependent Posteriors,” Neurocomputing, 2021. [8] W. Tatum, A. Husain, S. Benbadis, and P. Kaplan, Handbook of EEG Interpretation. New York City, New York, USA: Demos Medical Publishing, 2007. [9] D. P. Bovet and C. Marco, Understanding the Linux Kernel, 3rd ed. O’Reilly Media, Inc., 2005. https://www.oreilly.com/library/view/understanding-the-linux/0596005652/. [10] V. Shah et al., “The Temple University Hospital Seizure Detection Corpus,” Front. Neuroinform., vol. 12, pp. 1–6, 2018. https://doi.org/10.3389/fninf.2018.00083. [11] F. Pedregosa et al., “Scikit-learn: Machine Learning in Python,” J. Mach. Learn. Res., vol. 12, pp. 2825–2830, 2011. https://dl.acm.org/doi/10.5555/1953048.2078195. [12] J. Gotman, D. Flanagan, J. Zhang, and B. Rosenblatt, “Automatic seizure detection in the newborn: Methods and initial evaluation,” Electroencephalogr. Clin. Neurophysiol., vol. 103, no. 3, pp. 356–362, 1997. https://doi.org/10.1016/S0013-4694(97)00003-9. 

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2. Transfer learning for galaxy feature detection: Finding giant star-forming clumps in low-redshift galaxies using Faster Region-based Convolutional Neural Network

   https://doi.org/10.1093/rasti/rzae013  

   Popp, Jürgen J. ; Dickinson, Hugh ; Serjeant, Stephen ; Walmsley, Mike ; Adams, Dominic ; Fortson, Lucy ; Mantha, Kameswara ; Mehta, Vihang ; Dawson, James M. ; Kruk, Sandor ; et al ( April 2024 , RAS Techniques and Instruments)

   Giant star-forming clumps (GSFCs) are areas of intensive star-formation that are commonly observed in high-redshift (z ≳ 1) galaxies but their formation and role in galaxy evolution remain unclear. Observations of low-redshift clumpy galaxy analogues are rare but the availability of wide-field galaxy survey data makes the detection of large clumpy galaxy samples much more feasible. Deep Learning (DL), and in particular Convolutional Neural Networks (CNNs), have been successfully applied to image classification tasks in astrophysical data analysis. However, one application of DL that remains relatively unexplored is that of automatically identifying and localizing specific objects or features in astrophysical imaging data. In this paper, we demonstrate the use of DL-based object detection models to localize GSFCs in astrophysical imaging data. We apply the Faster Region-based Convolutional Neural Network object detection framework (FRCNN) to identify GSFCs in low-redshift (z ≲ 0.3) galaxies. Unlike other studies, we train different FRCNN models on observational data that was collected by the Sloan Digital Sky Survey and labelled by volunteers from the citizen science project ‘Galaxy Zoo: Clump Scout’. The FRCNN model relies on a CNN component as a ‘backbone’ feature extractor. We show that CNNs, that have been pre-trained for image classification using astrophysical images, outperform those that have been pre-trained on terrestrial images. In particular, we compare a domain-specific CNN – ‘Zoobot’ – with a generic classification backbone and find that Zoobot achieves higher detection performance. Our final model is capable of producing GSFC detections with a completeness and purity of ≥0.8 while only being trained on ∼5000 galaxy images.

    

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3. Design De-Identification of Thermal History for Collaborative Process-Defect Modeling of Directed Energy Deposition Processes

   https://doi.org/10.1115/1.4056488  

   Fullington, Durant ; Bian, Linkan ; Tian, Wenmeng ( May 2023 , Journal of Manufacturing Science and Engineering)

   Abstract There is an urgent need for developing collaborative process-defect modeling in metal-based additive manufacturing (AM). This mainly stems from the high volume of training data needed to develop reliable machine learning models for in-situ anomaly detection. The requirements for large data are especially challenging for small-to-medium manufacturers (SMMs), for whom collecting copious amounts of data is usually cost prohibitive. The objective of this research is to develop a secured data sharing mechanism for directed energy deposition (DED) based AM without disclosing product design information, facilitating secured data aggregation for collaborative modeling. However, one major obstacle is the privacy concerns that arise from data sharing, since AM process data contain confidential design information, such as the printing path. The proposed adaptive design de-identification for additive manufacturing (ADDAM) methodology integrates AM process knowledge into an adaptive de-identification procedure to mask the printing trajectory information in metal-based AM thermal history, which otherwise discloses substantial printing path information. This adaptive approach applies a flexible data privacy level to each thermal image based on its similarity with the other images, facilitating better data utility preservation while protecting data privacy. A real-world case study was used to validate the proposed method based on the fabrication of two cylindrical parts using a DED process. These results are expressed as a Pareto optimal solution, demonstrating significant improvements in privacy gain and minimal utility loss. The proposed method can facilitate privacy improvements of up to 30% with as little as 0% losses in dataset utility after de-identification. 

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4. On the performance of machine learning fairness in image classification

   https://doi.org/10.1117/12.2665725  

   Khakurel, Utsab ; Rawat, Danda B. ( June 2023 , Artificial Intelligence and Machine Learning for Multi-Domain Operations Applications V)

   Solomon, Latasha ; Schwartz, Peter J. (Ed.)

   In recent years, computer vision has made significant strides in enabling machines to perform a wide range of tasks, from image classification and segmentation to image generation and video analysis. It is a rapidly evolving field that aims to enable machines to interpret and understand visual information from the environment. One key task in computer vision is image classification, where algorithms identify and categorize objects in images based on their visual features. Image classification has a wide range of applications, from image search and recommendation systems to autonomous driving and medical diagnosis. However, recent research has highlighted the presence of bias in image classification algorithms, particularly with respect to human-sensitive attributes such as gender, race, and ethnicity. Some examples are computer programmers being predicted better in the context of men in images compared to women, and the accuracy of the algorithm being better on greyscale images compared to colored images. This discrepancy in identifying objects is developed through correlation the algorithm learns from the objects in context known as contextual bias. This bias can result in inaccurate decisions, with potential consequences in areas such as hiring, healthcare, and security. In this paper, we conduct an empirical study to investigate bias in the image classification domain based on sensitive attribute gender using deep convolutional neural networks (CNN) through transfer learning and minimize bias within the image context using data augmentation to improve overall model performance. In addition, cross-data generalization experiments are conducted to evaluate model robustness across popular open-source image datasets. 

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5. Morphological Dynamics-Based Anomaly Detection Towards In Situ Layer-Wise Certification for Directed Energy Deposition Processes

   https://doi.org/10.1115/1.4054805  

   Bappy, Mahathir Mohammad ; Liu, Chenang ; Bian, Linkan ; Tian, Wenmeng ( November 2022 , Journal of Manufacturing Science and Engineering)

   Abstract The process uncertainty induced quality issue remains the major challenge that hinders the wider adoption of additive manufacturing (AM) technology. The defects occurred significantly compromise structural integrity and mechanical properties of fabricated parts. Therefore, there is an urgent need in fast, yet reliable AM component certification. Most finite element analysis related methods characterize defects based on the thermomechanical relationships, which are computationally inefficient and cannot capture process uncertainty. In addition, there is a growing trend in data-driven approaches on characterizing the empirical relationships between thermal history and anomaly occurrences, which focus on modeling an individual image basis to identify local defects. Despite their effectiveness in local anomaly detection, these methods are quite cumbersome when applied to layer-wise anomaly detection. This paper proposes a novel in situ layer-wise anomaly detection method by analyzing the layer-by-layer morphological dynamics of melt pools and heat affected zones (HAZs). Specifically, the thermal images are first preprocessed based on the g-code to assure unified orientation. Subsequently, the melt pool and HAZ are segmented, and the global and morphological transition metrics are developed to characterize the morphological dynamics. New layer-wise features are extracted, and supervised machine learning methods are applied for layer-wise anomaly detection. The proposed method is validated using the directed energy deposition (DED) process, which demonstrates superior performance comparing with the benchmark methods. The average computational time is significantly shorter than the average build time, enabling in situ layer-wise certification and real-time process control. 

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